% -----------------------------------------------------------------------------
%
% Copyright (c) 2017 Sam Cox, Roberto Sommariva
%
% This file is part of the AtChem2 software package.
%
% This file is covered by the MIT license which can be found in the file
% LICENSE.md at the top level of the AtChem2 distribution.
%
% -----------------------------------------------------------------------------

% -------------------- PREAMBLE -------------------- %
\documentclass[11pt,a4paper]{report}
\usepackage{helvet,graphicx,hyperref}
\usepackage{fancyhdr,caption,natbib}
\usepackage[dvipsnames]{xcolor}
\usepackage[version=3]{mhchem}

% page style
\pagestyle{fancy}
\setlength{\headheight}{13.6pt}
\rhead{\leftmark}
\lhead{}

\renewcommand{\bibname}{References}
\frenchspacing

\renewcommand{\labelitemi}{$\diamond$}
\renewcommand{\labelitemii}{$\circ$}

% links
\hypersetup{colorlinks=true,
  linkcolor=BrickRed,
  citecolor=ForestGreen,
  urlcolor=NavyBlue}

% shortcuts
\newcommand{\maindir}{\texttt{\em Main Directory}}
\newcommand{\depdir}{\texttt{\em Dependencies Directory}}
\newcommand{\sharedir}{\texttt{\em Shared Library Directory}}
\newcommand{\degc}{^\circ\mathrm{C}}

% figures
\graphicspath{{../figures/}}

% -------------------- DOCUMENT -------------------- %
\begin{document}

% -------------------------------- %
% Vertical Line Title Page
%
% Template created by P. Wilson, modified by Vel
% https://www.latextemplates.com/template/vertical-line-title-page
%
% License: CC BY-NC-SA 3.0 (https://creativecommons.org/licenses/by-nc-sa/3.0/)

\pagenumbering{alph}
\begin{titlepage}
  \raggedleft   % Right align the title page
  \rule{1pt}{\textheight}  % Vertical line
  \hspace{0.05\textwidth}
  % Box for the title page text
  \parbox[b]{0.75\textwidth}{
    {\Huge\bfseries AtChem2\\[0.5\baselineskip] v1.3-dev}\\[2\baselineskip]  % Title
    {\LARGE\textit{User Manual}}\\[4\baselineskip]  % Subtitle
    {\Large\textsc{R. Sommariva\\S. Cox}}  % Author(s)
    \vspace{0.5\textheight}\\
    {\noindent \today}\\[\baselineskip]  % Date
    }

\end{titlepage}

% -------------------------------- %

\pagenumbering{arabic}
\tableofcontents

\include{Introduction}
\include{Installation}
\include{Setup}
\include{Execution}
\include{Development}
\include{Credits}

\bibliographystyle{abbrvnat}
\bibliography{References}
\addcontentsline{toc}{chapter}{References}

\end{document}
%    rates output and reaction rates output can't be zero in config
